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Phytophthora Database: A Forensic Database Supporting the Identification and Monitoring of Phytophthora

    Authors and Affiliations
    • Jongsun Park , School of Agricultural Biotechnology and Fungal Bioinformatics Laboratory, Seoul National University, Seoul, Korea
    • Bongsoo Park , Department of Plant Pathology
    • Narayanan Veeraraghavan , Center for Computational Genomics, Pennsylvania State University, University Park 16802
    • Kyongyong Jung
    • Yong-Hwan Lee , School of Agricultural Biotechnology and Fungal Bioinformatics Laboratory, Seoul National University
    • Jaime E. Blair
    • David M. Geiser
    • Scott Isard
    • Michele A. Mansfield
    • Ekaterina Nikolaeva
    • Sook-Young Park , Department of Plant Pathology, Pennsylvania State University
    • Joseph Russo , ZedX, Inc., Bellefonte, PA 16823
    • Seong H. Kim , Pennsylvania Department of Agriculture, Harrisburg 17110
    • Matthew Greene
    • Kelly L. Ivors , Mountain Horticultural Crops Research & Extension Center, North Carolina State University, Fletcher 28732
    • Yilmaz Balci , Division of Plant & Soil Sciences, West Virginia University, Morgantown 26506
    • Masoomeh Peiman
    • Donald C. Erwin
    • Michael D. Coffey , Department of Plant Pathology, University of California, Riverside 92521
    • Amy Rossman
    • David Farr
    • Erica Cline , United States Department of Agriculture–Agricultural Research Service (USDA-ARS), Systematic Botany & Mycology Laboratory, Beltsville, MD 20705
    • Niklaus J. Grünwald , USDA-ARS Horticultural Crops Research Laboratory, Corvallis, OR 97330
    • Douglas G. Luster , USDA-ARS, Foreign Disease-Weed Science Research Unit, Ft. Detrick, MD 21702
    • Julia Schrandt
    • Frank Martin , USDA-ARS, Salinas, CA 93906
    • Olaf K. Ribeiro , Ribeiro Plant Lab, Inc., Bainbridge Island, WA 98110
    • Izabela Makalowska , Center for Computational Genomics
    • Seogchan Kang , Department of Plant Pathology, Pennsylvania State University

      Published Online:https://doi.org/10.1094/PDIS-92-6-0966

      Phytophthora spp. represent a serious threat to agricultural and ecological systems. Many novel Phytophthora spp. have been reported in recent years, which is indicative of our limited understanding of the ecology and diversity of Phytophthora spp. in nature. Systematic cataloging of genotypic and phenotypic information on isolates of previously described species serves as a baseline for identification, classification, and risk assessment of new Phytophthora isolates. The Phytophthora Database (PD) was established to catalog such data in a web-accessible and searchable format. To support the identification of new Phytophthora isolates via comparison of their sequences at one or more loci with the corresponding sequences derived from the isolates archived in the PD, we generated and deposited sequence data from more than 1,500 isolates representing the known diversity in the genus. Data search and analysis tools in the PD include BLAST, Phyloviewer (a program for building phylogenetic trees using sequences of selected isolates), and Virtual Gel (a program for generating expected restriction patterns for given sequences). The PD also provides a customized means of storing and sharing data via the web. The PD serves as a model that easily can be adopted to develop databases for other important pathogen groups.